SrasV1, Main, Exploration, bibRecord, 005F05

Prediction of proteinase cleavage sites in polyproteins of coronaviruses and its applications in analyzing SARS-CoV genomes.

Identifieur interne : 005F05 ( Main/Exploration ); précédent : 005F04; suivant : 005F06

Prediction of proteinase cleavage sites in polyproteins of coronaviruses and its applications in analyzing SARS-CoV genomes.

Auteurs : Feng Gao [République populaire de Chine] ; Hong-Yu Ou ; Ling-Ling Chen ; Wen-Xin Zheng ; Chun-Ting Zhang

Source :

FEBS letters [ 0014-5793 ] ; 2003.

RBID : pubmed:14572668

Descripteurs français

KwdFr :
- Alignement de séquences, Animaux, Bases de données génétiques, Bovins, Coronavirus (), Coronavirus (enzymologie), Coronavirus (génétique), Données de séquences moléculaires, Endopeptidases (), Endopeptidases (métabolisme), Génome viral, Humains, Logiciel, Oiseaux, Polyprotéines (), Polyprotéines (génétique), Polyprotéines (métabolisme), Protéines virales (génétique), Protéines virales (métabolisme), Sites de fixation, Souris, Suidae, Séquence d'acides aminés, Virus du SRAS (génétique).
MESH :
- enzymologie : Coronavirus.
- génétique : Coronavirus, Polyprotéines, Protéines virales, Virus du SRAS.
- métabolisme : Endopeptidases, Polyprotéines, Protéines virales.
- Alignement de séquences, Animaux, Bases de données génétiques, Bovins, Coronavirus, Données de séquences moléculaires, Endopeptidases, Génome viral, Humains, Logiciel, Oiseaux, Polyprotéines, Sites de fixation, Souris, Suidae, Séquence d'acides aminés.

English descriptors

KwdEn :
- Amino Acid Sequence, Animals, Binding Sites, Birds, Cattle, Coronavirus (chemistry), Coronavirus (enzymology), Coronavirus (genetics), Databases, Genetic, Endopeptidases (chemistry), Endopeptidases (metabolism), Genome, Viral, Humans, Mice, Molecular Sequence Data, Polyproteins (chemistry), Polyproteins (genetics), Polyproteins (metabolism), SARS Virus (genetics), Sequence Alignment, Software, Swine, Viral Proteins (genetics), Viral Proteins (metabolism).
MESH :
- chemical , chemistry : Endopeptidases, Polyproteins.
- chemistry : Coronavirus.
- enzymology : Coronavirus.
- genetics : Coronavirus, Polyproteins, SARS Virus, Viral Proteins.
- chemical , metabolism : Endopeptidases, Polyproteins, Viral Proteins.
- Amino Acid Sequence, Animals, Binding Sites, Birds, Cattle, Databases, Genetic, Genome, Viral, Humans, Mice, Molecular Sequence Data, Sequence Alignment, Software, Swine.

Abstract

Recently, we have developed a coronavirus-specific gene-finding system, ZCURVE_CoV 1.0. In this paper, the system is further improved by taking the prediction of cleavage sites of viral proteinases in polyproteins into account. The cleavage sites of the 3C-like proteinase and papain-like proteinase are highly conserved. Based on the method of traditional positional weight matrix trained by the peptides around cleavage sites, the present method also sufficiently considers the length conservation of non-structural proteins cleaved by the 3C-like proteinase and papain-like proteinase to reduce the false positive prediction rate. The improved system, ZCURVE_CoV 2.0, has been run for each of the 24 completely sequenced coronavirus genomes in GenBank. Consequently, all the non-structural proteins in the 24 genomes are accurately predicted. Compared with known annotations, the performance of the present method is satisfactory. The software ZCURVE_CoV 2.0 is freely available at http://tubic.tju.edu.cn/sars/.

DOI: 10.1016/s0014-5793(03)01091-3
PubMed: 14572668

Affiliations:

Le document en format XML

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<front><div type="abstract" xml:lang="en">Recently, we have developed a coronavirus-specific gene-finding system, ZCURVE_CoV 1.0. In this paper, the system is further improved by taking the prediction of cleavage sites of viral proteinases in polyproteins into account. The cleavage sites of the 3C-like proteinase and papain-like proteinase are highly conserved. Based on the method of traditional positional weight matrix trained by the peptides around cleavage sites, the present method also sufficiently considers the length conservation of non-structural proteins cleaved by the 3C-like proteinase and papain-like proteinase to reduce the false positive prediction rate. The improved system, ZCURVE_CoV 2.0, has been run for each of the 24 completely sequenced coronavirus genomes in GenBank. Consequently, all the non-structural proteins in the 24 genomes are accurately predicted. Compared with known annotations, the performance of the present method is satisfactory. The software ZCURVE_CoV 2.0 is freely available at http://tubic.tju.edu.cn/sars/.</div>
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Prediction of proteinase cleavage sites in polyproteins of coronaviruses and its applications in analyzing SARS-CoV genomes.

Prediction of proteinase cleavage sites in polyproteins of coronaviruses and its applications in analyzing SARS-CoV genomes.

Source :

Descripteurs français

English descriptors

Abstract

Links toward previous steps (curation, corpus...)

Le document en format XML

Pour manipuler ce document sous Unix (Dilib)

Pour mettre un lien sur cette page dans le réseau Wicri

Pour générer des pages wiki

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